Macrophage derived-inflammation for confitioning of mesenchymal stromal cells
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ABSTRACT:
PROVIDER: PRJNA679483 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR13084859_1.fastq.gz | Fastqsanger.gz | |||
| SRR13084859_2.fastq.gz | Fastqsanger.gz | |||
| SRR13084860_1.fastq.gz | Fastqsanger.gz | |||
| SRR13084860_2.fastq.gz | Fastqsanger.gz | |||
| SRR13084861_1.fastq.gz | Fastqsanger.gz |
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Similar Datasets
Project description:The study: Bone marrow-derived mesenchymal stromal cells (MSC) can be triggered to enhance the expression of repair associated factors by certain stimuli. The purpose of this study was to perform a transcriptome-wide analysis of the effect of macrophage-derived inflammation on MSC and evaluate the repair potential of the conditioned cells. To validate the results, we compared the condition of interest to three control conditions, described bellow. Methods: MSC were cultured in baseline conditions (D10 medium) until reaching passage 4. In parallel, monocytes were differentiated to macrophages and polarized to pro-inflammatory (M1) or non-polarized (M0). After 24h of polarization, the supernatants were collected to produce M1CM and M0CM, respectively. The medium used for macrophage polarization (Pol1) was included in the conditions for MSC culture as a control. The medium of all MSC cultures was changed into fresh D10, M1CM, M0CM or Pol1, and they were cultured for 24h (conditioning). Then, MSC were trypsinized and their RNA was extracted. We worked with Novogene Inc. USA for the RNAsequencing, which they performed based on the Illumina platform. Novogene performed the sequencing, data processing and preliminary analysis. We then did the downstream analysis and data interpretation. Results: Dowstream analysis, after data processing was completed for all samples and groups, was focused on the comparison M1CM vs D10. This is because the effect of M0CM and Pol1 on MSC was minor compared to the effect of M1CM, based on correlation and Venn diagram analysis. M1CM induced 1721 upregulated DEG and 1487 downregulated DEG in MSC compared to D10. Among those genes, the GO and KEGG analyses showed enrichment in GO terms and pathways associated to the enhancement of angiogenesis, immunomodulation, paracrine cell survival, tissue development and regeneration, indicating increased therapeutic potential. Additionally, genes associated with programmed cell death were upregulated, while cell cycle and motility associated genes were downregulated, indicating compromised cell viability and motility. Conclusions: We found that macrophage-derived inflammation induces a transcriptomic makeover on MSC, enhancing their reparative potential. These results reveal the possibility to use inflammation as a priming method for MSC before transplantation, which could potentiate the transplant's efficacy. Further pre-clinical studies are necessary to determine the effects of the beneficial outcomes in tissue, as well as the implications of compromised viability and motility.
2021-01-21 | GSE161798 | GEO
Project description:This SuperSeries is composed of the following subset Series: GSE30064: Cultured human amniotic fluid-derived mesenchymal stromal cells [PIQOR data] GSE30065: Cultured human amniotic fluid-derived mesenchymal stromal cells [miRXplore data] Refer to individual Series
2011-06-18 | E-GEOD-30066 | biostudies-arrayexpress
Project description:This SuperSeries is composed of the following subset Series: GSE20045: A mesoderm-derived mesenchymal stem/stromal cells (MSC) precursor: time course experiment GSE20046: A mesoderm-derived mesenchymal stem/stromal cells (MSC) precursor: stages of development experiment Refer to individual Series
2010-12-03 | E-GEOD-20047 | biostudies-arrayexpress
Project description:The raw files of the proteomics dataset are N=18 and a brief description of the files is shown below:
AF1 raw: exosomes derived from Amniotic Fluid-Mesenchymal Stromal cells 1
AF2.raw: exosomes derived from Amniotic Fluid-Mesenchymal Stromal cells 2
AFA1.raw: exosomes derived from Amniotic Fluid-Mesenchymal Stromal cells 3
AFA2.raw: exosomes derived from Amniotic Fluid-Mesenchymal Stromal cells 4
AFB1.raw: exosomes derived from Amniotic Fluid-Mesenchymal Stromal cells 5
AFB2.raw: exosomes derived from Amniotic Fluid-Mesenchymal Stromal cells 6
HL1A.raw: exosomes derived from Hepatocyte like cells 1
HL1B.raw: exosomes derived from Hepatocyte like cells 2
HL2A.raw: exosomes derived from Hepatocyte like cells 3
HL2B.raw: exosomes derived from Hepatocyte like cells 4
HL3A.raw: exosomes derived from Hepatocyte like cells 5
HL3B.raw: exosomes derived from Hepatocyte like cells 6
HPLA1.raw: exosomes derived from Hepatic Progenitor-like cells 1
HPLA2.raw: exosomes derived from Hepatic Progenitor-like cells 2
HPLB1.raw: exosomes derived from Hepatic Progenitor-like cells 3
HPLB2.raw: exosomes derived from Hepatic Progenitor-like cells 4
HPLA.raw: exosomes derived from Hepatic Progenitor-like cells 5
HPLB.raw: exosomes derived from Hepatic Progenitor-like cells 6
Raw files analysis was performed with Proteome Discoverer 1.4 (Thermo) software package, using the Sequest search engine and the Uniprot human (Homo sapiens) reviewed database, downloaded on December 15, 2017, including 20,243 entries. The search was performed using carbamidomethylation of cysteine as static and oxidation of methionine as dynamic modifications. Two missed cleavage sites, a precursor mass tolerance of 10 ppm and fragment mass tolerance of 0.05 Da were allowed. False discovery rate (FDR) validation was based on q value: target FDR : 0.05. Label free quantification was performed by utilizing the precursor ion area values exported from the total ion chromatogram as defined by the Proteome Discoverer v. 1.4.0.288 (Thermo Scientific). Output files from Proteome Discoverer were processed with R programming language for statistical computing (version 4.0.3).
The following comparisons were made: AF vs HL, AF vs HPL and HL vs HPL.
The msf files are N=18 and have the same name as the raw files above.
| MSV000092848 | MassIVE
Project description:Single-cell sequencing of adipose-derived mesenchymal stromal cells and fibroblasts.
| EGAS00001006954 | EGA
Project description:Mesenchymal stromal cells (MSCs) have been shown to exert their therapeutic effects through the secretion of various paracrine factors, including extracellular vesicles (EVs). These EVs are now being developed as a promising alternative to cell-based therapies. Menstrual blood-derived stromal cells (MenSCs) are a type of MSC that have emerged as a innovative source due to their immunomodulatory and regenerative properties. Additionally, new strategies of cell priming could potentially alter the concentration and cargo of released EVs, leading to modifications in their biological properties. In this study, we aimed to characterize the EVs released by MenSCs and to compare their therapeutic potential under three different preconditioning conditions (proinflammatory stimuli, physioxia, and acute hypoxia).
2023-04-05 | MSV000091644 | MassIVE
Project description:Mesenchymal Stromal Cell-Derived Exosomes Attenuate Myocardial Ischemia-Reperfusion Injury through miR-182-Regulated Macrophage Polarization
| PRJNA491732 | ENA
Project description:Metabolomics and lipidomics workflows were used to analyze Mesenchymal stromal cell (MSC) metabolites. Metabolite abundances were used to model MSC potency results in IDO and T-cell proliferation assays.
2023-02-07 | ST002469 | MetabolomicsWorkbench
Project description:We revealed a single cell transcriptional landscape of bone marrow mesenchymal stromal cells derived from the fetal perichondrium.
2019-02-26 | GSE126967 | GEO
Project description:Aims: Mesenchymal stem cells (MSCs) gradually become attractive candidates for cardiac inflammation modulation, yet understanding of the mechanism remains elusive. Strikingly, recent studies indicated that exosomes secreted by MSCs might be a novel mechanism for the beneficial effect of MSCs transplantation after myocardial infarction. We therefore explored the role of MSC-derived exosomes (MSC-Exo) in the immunomodulation of macrophages after myocardial ischemia-reperfusion and its implications in cardiac injury repair. Methods and Results: Exosomes were isolated from the supernatant of MSCs using a gradient centrifugation method. Administration of MSC-Exo through intramyocardial injection after myocardial ischemia reperfusion reduced infarct size and alleviated inflammation level in heart and serum. Systemic depletion of macrophages with clodronate liposomes abolished the curative effects of MSC-Exo. MSC-Exo modified the polarization of M1 macrophages to M2 macrophages both in vivo and in vitro. miRNA-sequencing of MSC-Exo and bioinformatics analysis implicated miR-182 as a potent candidate mediator of macrophage polarization and TLR4 as a downstream target. Diminishing miR-182 in MSC-Exo partially attenuated its modulation of macrophage polarization. Likewise, knock down of TLR4 also conferred cardioprotective efficacy and reduced inflammation level in a mouse model of myocardial ischemia/reperfusion. Conclusion: Our data indicates that MSC-Exo attenuates myocardial ischemia/reperfusion injury via shuttling miR-182 that modifies the polarization state of macrophages. This study sheds new light on the application of MSC-Exo a potential therapeutic tool for myocardial ischemia/reperfusion injury.
2021-09-01 | GSE120149 | GEO